BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0015.0136.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312667|ref|YP_003776759.1| anti-restriction protein ArdA [... 437 e-124 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 110 2e-25 gi|300310865|ref|YP_003774957.1| response regulator containing a... 109 3e-25 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 105 4e-24 gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PA... 100 1e-22 >gi|300312667|ref|YP_003776759.1| anti-restriction protein ArdA [Herbaspirillum seropedicae SmR1] Length = 354 Score = 437 bits (1125), Expect = e-124, Method: Compositional matrix adjust. Identities = 226/301 (75%), Positives = 253/301 (84%), Gaps = 7/301 (2%) Query: 2 IPYRAERRNLVIDAAFGGFWIAALHGNLVPSAVIISMLSMDNIAAGGLRLFMRGLYASLV 61 IPYRAERRNLVIDAAFGGFWIAA+ GNLVPSAVI+SMLSMDNIAAGGLRLFMRGLYAS+ Sbjct: 59 IPYRAERRNLVIDAAFGGFWIAAMQGNLVPSAVILSMLSMDNIAAGGLRLFMRGLYASIA 118 Query: 62 AGVLGWWLLGAHFQPQSDLTTILACLPMMMLYPLALGQSTYLMSKKLADRSRQFEIVSQL 121 A LGWWLL AH+ PQSDL TILACLPMM LYPLALG+STY MSKKLA+RSRQFE+VSQ+ Sbjct: 119 ACALGWWLLDAHWSPQSDLPTILACLPMMALYPLALGKSTYEMSKKLAERSRQFEVVSQM 178 Query: 122 DGLTLLFNRRYWESLLLGEFERLHRQSSAQH-QTFLLLLDLDHFKSINDTWGHLIGDEVL 180 DGLT LFNRRYWESLL+ EF + + AQ ++FLLLLDLDHFK INDT GHL+GDEVL Sbjct: 179 DGLTHLFNRRYWESLLIEEFSQRRKAPGAQQKESFLLLLDLDHFKRINDTHGHLVGDEVL 238 Query: 181 RNFARLLRTMLREQDAIGRYGGEEFGVILRDVSPADALALSQRVIEAARTRNDE-NNLYG 239 RNFA+LLR LR++D IGRYGGEEF VILR+++ ADAL LSQR++E AR D N LYG Sbjct: 239 RNFAQLLRIHLRKEDLIGRYGGEEFVVILRNIAHADALHLSQRLVERARASQDGVNKLYG 298 Query: 240 CTVSAGLVPFSADMDAHFVWLQRADHAMYCAKESGRDRLVVWDPALERAPRMPNQPPPPC 299 CTVSAGLVPF++DM+AHFVWLQRADHAMYCAK +GRDRLVVW+ L R N P Sbjct: 299 CTVSAGLVPFTSDMEAHFVWLQRADHAMYCAKANGRDRLVVWEATLVR-----NAEPATV 353 Query: 300 C 300 C Sbjct: 354 C 354 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 76/211 (36%), Positives = 115/211 (54%), Gaps = 10/211 (4%) Query: 82 TILACLPMMMLYPLALGQSTYLMSKKLADR---SRQFEIVSQLDGLTLLFNRRYWESLLL 138 T+ + L +++++ G L+ ++L R +Q E +++ DGLT L NRR + LL Sbjct: 287 TLYSVLLLLIIFTALAGVLLMLVRRELLKRVAAEKQLEDLARTDGLTGLLNRRSLDEALL 346 Query: 139 GEFERLHRQSSAQHQTFLLLLDLDHFKSINDTWGHLIGDEVLRNFARLLRTML-REQDAI 197 ++R R +A T L +D+D+FK NDT+GH +GD VL+ A +LR L R+ D Sbjct: 347 AVWQRSQRSPTAGFST--LFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLA 404 Query: 198 GRYGGEEFGVILRDVSPADALALSQRVIEAARTR---NDENNLYGCTVSAGLVPFS-ADM 253 GRYGGEEF V+L AL ++Q++ EA R + + L +VS G+ + A Sbjct: 405 GRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPH 464 Query: 254 DAHFVWLQRADHAMYCAKESGRDRLVVWDPA 284 L ADHA+Y AK GR+R+ V P Sbjct: 465 QRMEDVLNAADHALYIAKREGRNRVCVAHPG 495 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 109 bits (272), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 70/174 (40%), Positives = 98/174 (56%), Gaps = 10/174 (5%) Query: 113 RQFEIVSQLDGLTLLFNRRYWESLLLGEFERLHRQSSAQHQTFLLLLDLDHFKSINDTWG 172 R E SQ DGLT +FNRRY+++ L E RL+R + L+++D+DHFK NDT+G Sbjct: 347 RTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGES---LSLMMIDVDHFKQFNDTYG 403 Query: 173 HLIGDEVLRNFARLLRTMLREQ-DAIGRYGGEEFGVILRDVSPADALALSQRVIEAAR-- 229 H GD LR A + T+ R Q D + RYGGEEF VIL + P A L+ RV++A R Sbjct: 404 HAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVRGL 463 Query: 230 -TRNDENNLYGCTVSAGLVPFSADMDAHF---VWLQRADHAMYCAKESGRDRLV 279 ++ + + T+S G+ ++ + AD A+Y AKE GRDR V Sbjct: 464 EIAHERSPMGVVTISVGVASLASGKSLLIEPRELIDSADGALYRAKEEGRDRAV 517 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 105 bits (262), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 67/171 (39%), Positives = 93/171 (54%), Gaps = 7/171 (4%) Query: 113 RQFEIVSQLDGLTLLFNRRYWESLLLGEFERLHRQSSAQHQTFLLLLDLDHFKSINDTWG 172 RQ E +++ DGLT L NRR + L +ER R A +L +D+D+FK+ NDT+G Sbjct: 341 RQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFS--VLFIDVDYFKAYNDTYG 398 Query: 173 HLIGDEVLRNFARLLRTML-REQDAIGRYGGEEFGVILRDVSPADALALSQRVIEAARTR 231 H +GD VL+ A L L R D GRYGGEEF V+L A ++QR+ +A R R Sbjct: 399 HKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRER 458 Query: 232 ---NDENNLYGCTVSAGLVPFSADMDAHFV-WLQRADHAMYCAKESGRDRL 278 + + L T+S G+ D L AD A+Y AK++GRDR+ Sbjct: 459 HIAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDRV 509 >gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC sensor protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 63/159 (39%), Positives = 87/159 (54%), Gaps = 4/159 (2%) Query: 122 DGLTLLFNRRYWESLLLGEFERLHRQSSAQHQTFLLLLDLDHFKSINDTWGHLIGDEVLR 181 D LT L NRRY+ L E+ R+ R +A +L+ DLDHFK IND+ GH +GD VLR Sbjct: 444 DYLTQLPNRRYFMQRLQEEYSRIQRSVTAG--AAVLMCDLDHFKRINDSLGHAVGDLVLR 501 Query: 182 NFARLLRTMLREQDAIGRYGGEEFGVILRDVSPADALALSQRVIE--AARTRNDENNLYG 239 +FA +L++ LR D GR GGEEF +IL A + R+ A + + Sbjct: 502 HFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAAADFAARLQNRFAGQPLIHDEREVK 561 Query: 240 CTVSAGLVPFSADMDAHFVWLQRADHAMYCAKESGRDRL 278 T+S G+ AD L+ +D A+Y AKE GR+R+ Sbjct: 562 VTLSIGVALMQADSAGQEQVLRASDDALYRAKEKGRNRV 600 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.326 0.139 0.436 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 860,183 Number of extensions: 32763 Number of successful extensions: 219 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 39 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)